› 2fjx

X-ray diffraction
1.8Å resolution

RT29 bound to D(CTTGAATGCATTCAAG) in complex with MMLV RT catalytic fragment

Released:
DOI: 10.2210/pdb2fjx/pdb
PDB entry 2fjx coloured by chain, front view.
PDB entry 2fjx coloured by chain, side view.
PDB entry 2fjx coloured by chain, top view.
Source organism: Moloney murine leukemia virus
Primary publication:
A high-throughput, high-resolution strategy for the study of site-selective DNA binding agents: analysis of a "highly twisted" benzimidazole-diamidine.
Goodwin KD, Lewis MA, Tanious FA, Tidwell RR, Wilson WD, Georgiadis MM, Long EC
J Am Chem Soc 128 7846-54 (2006)
PMID: 16771498

Function and Biology Details

Reactions catalysed: 
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
Endonucleolytic cleavage to 5'-phosphomonoester.
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
hetero hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-115262 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Reverse transcriptase/ribonuclease H Chain: A
Molecule details ›
Chain: A
Length: 255 amino acids
Theoretical weight: 28.93 KDa
Source organism: Moloney murine leukemia virus
Expression system: Escherichia coli
UniProt:
  • Canonical: P03355 (Residues: 683-937; Coverage: 15%)
Gene name: gag-pol
Sequence domains: Reverse transcriptase (RNA-dependent DNA polymerase)
Structure domains:
5'-D(*CP*TP*TP*GP*AP*AP*TP*G)-3' Chain: B
Molecule details ›
Chain: B
Length: 8 nucleotides
Theoretical weight: 2.44 KDa
Source organism: Moloney murine leukemia virus
Expression system: Not provided
5'-D(P*CP*AP*TP*TP*CP*AP*AP*G)-3' Chain: G
Molecule details ›
Chain: G
Length: 8 nucleotides
Theoretical weight: 2.41 KDa
Source organism: Moloney murine leukemia virus
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand HXL 1 x HXL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: P21212
Unit cell:
a: 54.749Å b: 145.45Å c: 46.855Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.27 0.234 0.266
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

2 review citations

Non-covalent ligand/DNA interactions: minor groove binding agents.
Nelson et al. (2007)
1 more

2 mentions without citation

Toward an Expanded Genome: Structural and Computational Characterization of an Artificially Expanded Genetic Information System.
Richards et al. (2017)
1 more